## Loading required package: ggplot2
## Loading required package: cowplot
## 
## ********************************************************
## Note: As of version 1.0.0, cowplot does not change the
##   default ggplot2 theme anymore. To recover the previous
##   behavior, execute:
##   theme_set(theme_cowplot())
## ********************************************************
## Loading required package: Matrix
## Registered S3 method overwritten by 'R.oo':
##   method        from       
##   throw.default R.methodsS3
## 
## Attaching package: 'tidyr'
## The following objects are masked from 'package:Matrix':
## 
##     expand, pack, unpack
## 
## Attaching package: 'dplyr'
## The following objects are masked from 'package:stats':
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##     filter, lag
## The following objects are masked from 'package:base':
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##     intersect, setdiff, setequal, union
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## Attaching package: 'magrittr'
## The following object is masked from 'package:tidyr':
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##     extract

Look at changes in gene expression of lola target genes

Project: Promoter Opening

Author: Vivek

Generated: Tue Jan 25 2022, 09:22 AM

## Scaling data matrix
## Scaling data matrix
## Scaling data matrix

## Scaling data matrix
## Scaling data matrix
## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in dtw(x = align.1, y = align.2, keep.internals = TRUE, dist.method
## = metric.use): Argument dist.method does not usually make a difference with
## single-variate timeseries

## Warning in as_grob.default(plot): Cannot convert object of class environment
## into a grob.

## Warning in as_grob.default(plot): Cannot convert object of class NULL into a
## grob.

Session information

For reproducibility, this analysis was performed with the following R/Bioconductor session:

R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.2 LTS

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1

locale:
 [1] LC_CTYPE=C.UTF-8       LC_NUMERIC=C           LC_TIME=C.UTF-8       
 [4] LC_COLLATE=C.UTF-8     LC_MONETARY=C.UTF-8    LC_MESSAGES=C.UTF-8   
 [7] LC_PAPER=C.UTF-8       LC_NAME=C              LC_ADDRESS=C          
[10] LC_TELEPHONE=C         LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C   

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] RColorBrewer_1.1-2 magrittr_1.5       dplyr_0.8.3        tidyr_1.0.0       
[5] Seurat_2.3.1       Matrix_1.2-17      cowplot_1.0.0      ggplot2_3.2.1     
[9] pander_0.6.3      

loaded via a namespace (and not attached):
  [1] snow_0.4-3           backports_1.1.4      Hmisc_4.2-0         
  [4] VGAM_1.1-3           plyr_1.8.4           igraph_1.2.4.1      
  [7] lazyeval_0.2.2       splines_3.6.1        digest_0.6.20       
 [10] foreach_1.5.0        htmltools_0.3.6      lars_1.2            
 [13] gdata_2.18.0         checkmate_1.9.4      cluster_2.1.0       
 [16] mixtools_1.2.0       ROCR_1.0-7           recipes_0.1.13      
 [19] gower_0.2.2          R.utils_2.9.0        colorspace_1.4-1    
 [22] xfun_0.29            crayon_1.3.4         jsonlite_1.6        
 [25] zeallot_0.1.0        survival_2.44-1.1    zoo_1.8-6           
 [28] iterators_1.0.12     ape_5.3              glue_1.3.1          
 [31] gtable_0.3.0         ipred_0.9-9          kernlab_0.9-29      
 [34] prabclus_2.3-2       DEoptimR_1.0-8       scales_1.0.0        
 [37] bibtex_0.4.2         Rcpp_1.0.5           metap_1.1           
 [40] dtw_1.22-3           htmlTable_1.13.1     tclust_1.4-2        
 [43] reticulate_1.13      foreign_0.8-72       proxy_0.4-24        
 [46] mclust_5.4.6         SDMTools_1.1-221.1   Formula_1.2-3       
 [49] stats4_3.6.1         tsne_0.1-3           lava_1.6.8          
 [52] prodlim_2019.11.13   htmlwidgets_1.3      FNN_1.1.3           
 [55] gplots_3.0.1.1       fpc_2.2-8            acepack_1.4.1       
 [58] modeltools_0.2-23    ellipsis_0.2.0.1     ica_1.0-2           
 [61] pkgconfig_2.0.2      R.methodsS3_1.7.1    flexmix_2.3-17      
 [64] nnet_7.3-12          caret_6.0-86         tidyselect_0.2.5    
 [67] labeling_0.3         rlang_0.4.0          reshape2_1.4.3      
 [70] munsell_0.5.0        tools_3.6.1          generics_0.0.2      
 [73] ranger_0.12.1        ggridges_0.5.1       evaluate_0.14       
 [76] stringr_1.4.0        yaml_2.2.0           npsurv_0.4-0        
 [79] ModelMetrics_1.2.2.2 knitr_1.24           fitdistrplus_1.0-14 
 [82] robustbase_0.93-6    caTools_1.17.1.2     purrr_0.3.2         
 [85] RANN_2.6.1           pbapply_1.4-2        nlme_3.1-141        
 [88] R.oo_1.22.0          compiler_3.6.1       rstudioapi_0.10     
 [91] png_0.1-7            lsei_1.2-0           tibble_2.1.3        
 [94] stringi_1.4.3        lattice_0.20-38      vctrs_0.2.0         
 [97] diffusionMap_1.2.0   pillar_1.4.2         lifecycle_0.1.0     
[100] Rdpack_0.11-0        lmtest_0.9-37        jquerylib_0.1.4     
[103] data.table_1.12.2    bitops_1.0-6         irlba_2.3.3         
[106] gbRd_0.4-11          R6_2.4.0             latticeExtra_0.6-28 
[109] KernSmooth_2.23-15   gridExtra_2.3        codetools_0.2-16    
[112] MASS_7.3-51.4        gtools_3.8.1         assertthat_0.2.1    
[115] withr_2.1.2          diptest_0.75-7       parallel_3.6.1      
[118] doSNOW_1.0.18        grid_3.6.1           rpart_4.1-15        
[121] timeDate_3043.102    class_7.3-15         rmarkdown_2.11      
[124] segmented_1.2-0      Cairo_1.5-10         Rtsne_0.15          
[127] pROC_1.16.2          scatterplot3d_0.3-41 lubridate_1.7.9     
[130] base64enc_0.1-3